Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI10215
Trapped Gene
Tm9sf2 (ENSMUSG00000025544)
Vector Insertion
Chr 14: 122532630 - 122536593
Public Clones XST007 (baygenomics) G052B04 (ggtc) P071H10 (ggtc)
Private Clones not available
Severity of mutation (?) Insertion after 23% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000151524 (Chr14:122532502..122532629 +)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000151524 (Chr14:122532502..122532629 +)
Downstram Exon
ENSMUSE00000151516 (Chr14:122536594..122536723 +)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon CACCACGTGACAGGCATATT Chr14:122536626..122536645 59.44 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000226256 Chr14:122506304..122506657 CGGTGTCTCCTAGCGTAACC Chr14:122506346..122506365 59.76 60
upstream ENSMUSE00000706402 Chr14:122506490..122506657 CCGAAGAGAAGAGCAACGAG Chr14:122506632..122506651 60.27 55
upstream ENSMUSE00000151519 Chr14:122522938..122523005 GCTTGATTCGGTGGAATCTG Chr14:122522964..122522983 60.6 50
upstream ENSMUSE00000151517 Chr14:122525328..122525421 ACTTTTGCCAAGCGTCAGAA Chr14:122525333..122525352 60.94 45
upstream ENSMUSE00000151524 Chr14:122532502..122532629 No primer for this exon

*** Putative Vector Insertion (Chr 14: 122532630 - 122536593) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000151516 Chr14:122536594..122536723 CACCACGTGACAGGCATATT Chr14:122536626..122536645 59.44 50
downstream ENSMUSE00000151515 Chr14:122538872..122538996 TTGCTCCCATAGACCCAGTT Chr14:122538968..122538987 59.55 50
downstream ENSMUSE00000151528 Chr14:122540421..122540532 TCTCCTGAAGCCTTGTTGCT Chr14:122540498..122540517 60.13 50
downstream ENSMUSE00000151522 Chr14:122541586..122541665 AGACGCCCATCTGATGTTTT Chr14:122541615..122541634 59.56 45
downstream ENSMUSE00000151518 Chr14:122542629..122542737 GCGTGCGTAACATAATCATAGC Chr14:122542697..122542718 59.68 45.46
downstream ENSMUSE00000151527 Chr14:122544319..122544451 CCTTTCTTGGAGGACGGAAT Chr14:122544388..122544407 60.43 50
downstream ENSMUSE00000151521 Chr14:122545887..122546006 ACATGTCATCAGGGCTCCTC Chr14:122545945..122545964 60.08 55
downstream ENSMUSE00000226198 Chr14:122547210..122547267 CCACTTTTCACCACCAAAGG Chr14:122547232..122547251 60.38 50
downstream ENSMUSE00000226192 Chr14:122549072..122549231 AACCAGAGTGCCAAAAGGAA Chr14:122549159..122549178 59.71 45
downstream ENSMUSE00000151526 Chr14:122549956..122550107 GATTGGTTCGAACTGGGTGT Chr14:122549986..122550005 59.83 50
downstream ENSMUSE00000151513 Chr14:122551186..122551297 No primer for this exon
downstream ENSMUSE00000151523 Chr14:122554550..122554721 GTACTTGCTGTCCCCGTGAT Chr14:122554668..122554687 60 55
downstream ENSMUSE00000646637 Chr14:122554550..122554600 GTAAGGAAGGAACGCCACTG Chr14:122554584..122554603 59.73 55
downstream ENSMUSE00000646636 Chr14:122554603..122554721 GTACTTGCTGTCCCCGTGAT Chr14:122554668..122554687 60 55
downstream ENSMUSE00000352842 Chr14:122557871..122558825 ACAAAGCCCGACAGTTTCAC Chr14:122558698..122558717 60.16 50
downstream ENSMUSE00000646635 Chr14:122557871..122557961 AACTGGACACACTGGGCTTC Chr14:122557962..122557981 60.16 55

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 CTGTCCAACGCAACTGACTG Chr14:122532648..122532668 60.5 55 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 AGTTGGGGCTCTGACAATGA Chr14:122532647..122532667 60.66 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000025544